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(-) Description

Title :  AP2 CONTROLS CLATHRIN POLYMERIZATION WITH A MEMBRANE-ACTIVATED SWITCH
 
Authors :  B. T. Kelly, S. C. Graham, N. Liska, P. N. Dannhauser, S. Hoening, E. J. Ungewickell, D. J. Owen
Date :  23 Jun 14  (Deposition) - 30 Jul 14  (Release) - 06 Aug 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.79
Chains :  Asym./Biol. Unit :  A,B,M,S
Keywords :  Endocytosis, Protein Transport, Lipid Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. T. Kelly, S. C. Graham, N. Liska, P. N. Dannhauser, S. Honing, E. J. Ungewickell, D. J. Owen
Clathrin Adaptors. Ap2 Controls Clathrin Polymerization With A Membrane-Activated Switch.
Science V. 345 459 2014
PubMed-ID: 25061211  |  Reference-DOI: 10.1126/SCIENCE.1254836

(-) Compounds

Molecule 1 - AP-2 COMPLEX SUBUNIT ALPHA-2
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMW172K
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: PLYSS
    Expression System Vector Type: PLASMID
    Fragment: ALPHA SUBUNIT TRUNK DOMAIN, RESIDUES 1-620
    Organism Common: NORWAY RAT
    Organism Scientific: RATTUS NORVEGICUS
    Organism Taxid: 10116
    Synonym: 100 KDA COATED VESICLE PROTEIN C, ADAPTER-RELATED PROTEIN COMPLEX 2 SUBUNIT ALPHA-2, ADAPTOR PROTEIN COMPLEX AP-2 SUBUNIT ALPHA-2, ALPHA-ADAPTIN C, ALPHA2-ADAPTIN, CLATHRIN ASSEMBLY PROTEIN COMPLEX 2 ALPHA-C LARGE CHAIN, PLASMA MEMBRANE ADAPTOR HA2/AP2 ADAPTIN ALPHA C SUBUNIT, AP2 CLATHRIN ADAPTOR
 
Molecule 2 - AP-2 COMPLEX SUBUNIT BETA
    Chains: B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMW172
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: PLYSS
    Expression System Vector Type: PLASMID
    Fragment: BETA 2 SUBUNIT EXTENDED TRUNK DOMAIN, RESIDUES 1-651
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: AP105B, ADAPTER-RELATED PROTEIN COMPLEX 2 SUBUNIT BETA, ADAPTOR PROTEIN COMPLEX AP-2 SUBUNIT BETA, BETA-2-ADAPTIN, BETA-ADAPTIN, CLATHRIN ASSEMBLY PROTEIN COMPLEX 2 BETA LARGE CHAIN, PLASMA MEMBRANE ADAPTOR HA2/AP2 ADAPTIN BETA SUBUNIT
 
Molecule 3 - AP-2 COMPLEX SUBUNIT MU
    Chains: M
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMW172
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: PLYSS
    Expression System Vector Type: PLASMID
    Organism Common: NORWAY RAT
    Organism Scientific: RATTUS NORVEGICUS
    Organism Taxid: 10116
    Synonym: AP-2 MU CHAIN, ADAPTER-RELATED PROTEIN COMPLEX 2 SUBUNIT MU, ADAPTOR PROTEIN COMPLEX AP-2 SUBUNIT MU, CLATHRIN ASSEMBLY PROTEIN COMPLEX 2 MU MEDIUM CHAIN, CLATHRIN COAT ASSEMBLY PROTEIN AP50, CLATHRIN COAT-ASSOCIATED PROTEIN AP50, MU2-ADAPTIN, PLASMA MEMBRANE ADAPTOR AP-2 50 KDA PROTEIN
 
Molecule 4 - AP-2 COMPLEX SUBUNIT SIGMA
    Chains: S
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMW172K
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Variant: PLYSS
    Expression System Vector Type: PLASMID
    Organism Common: HOUSE MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Synonym: ADAPTER-RELATED PROTEIN COMPLEX 2 SUBUNIT SIGMA, ADAPTOR PROTEIN COMPLEX AP-2 SUBUNIT SIGMA, CLATHRIN ASSEMBLY PROTEIN 2 SIGMA SMALL CHAIN, CLATHRIN COAT ASSEMBLY PROTEIN AP17, CLATHRIN COAT-ASSOCIATED PROTEIN AP17, PLASMA MEMBRANE ADAPTOR AP-2 17 KDA PROTEIN, SIGMA-ADAPTIN 3B, SIGMA2-ADAPTIN

 Structural Features

(-) Chains, Units

  1234
Asymmetric/Biological Unit : ABMS

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 2)

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1CL1Ligand/IonCHLORIDE ION
2IHP1Ligand/IonINOSITOL HEXAKISPHOSPHATE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREALA A:254 , TRP A:256 , LEU A:257 , THR S:126BINDING SITE FOR RESIDUE CL A1608
2AC2SOFTWAREARG A:11 , GLY A:12 , ASN A:39 , LYS A:43 , TYR A:53 , LYS A:57 , TYR A:58 , LYS A:61 , LYS M:341 , LYS M:343 , LYS M:345 , LYS M:354BINDING SITE FOR RESIDUE IHP A1609

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4UQI)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Ser B:190 -His B:191
2Leu B:248 -Ser B:249

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4UQI)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4UQI)

(-) Exons   (0, 0)

(no "Exon" information available for 4UQI)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:600
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhh......hhhhhhhhhh..hhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhh.ee..eehhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh..eeehhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh......... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4uqi A   9 GMRGLAVFISDIRNCKSKEAEIKRINKELANIRSKFKGDKALDGYSKKKYVCKLLFIFLLGHDIDFGHMEAVNLLSSNRYTEKQIGYLFISVLVNSNSELIRLINNAIKNDLASRNPTFMGLALHCIANVGSREMAEAFAGEIPKILVAGDTMDSVKQSAALCLLRLYRTSPDLVPMGDWTSRVVHLLNDQHLGVVTAATSLITTLAQKNPEEFKTSVSLAVSRLSRIVTSASTDLQDYTYYFVPAPWLSVKLLRLLQCYPPPEDPAVRGRLTECLETILNKAQEPPKSKKVQHSNAKNAVLFEAISLIIHHDSEPNLLVRACNQLGQFLQHRETNLRYLALESMCTLASSEFSHEAVKTHIETVINALKTERDVSVRQRAVDLLYAMCDRSNAQQIVAEMLSYLETADYSIREEIVLKVAILAEKYAVDYTWYVDTILNLIRIAGDYVSEEVWYRVIQIVINRDDVQGYAAKTVFEALQAPACHENLVKVGGYILGEFGNLIAGDPRSSPLIQFNLLHSKFHLCSVPTRALLLSTYIKFVNLFPEVKATIQDVLRSDSQLKNADVELQQRAVEYLRLSTVASTDILATVLEEMPPFPER 608
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       468       478       488       498       508       518       528       538       548       558       568       578       588       598       608


Chain B from PDB  Type:PROTEIN  Length:597
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .........hhhhhhhhhh...hhhhhhhhhhhhhhhhhh...hhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhh...hhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh......hhhhhh.....hhhhhhhhhhhhhhhh...hhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh..hhhhhhhhhhhhh......hhhhhhhh.............hhhhhhhhhh....hhhhhh.hhhhhh.eee.hhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4uqi B   4 SKYFTTNKKGEIFELKAELNNEKKEKRKEAVKKVIAAMTVGKDVSSLFPDVVNCMQTDNLELKKLVYLYLMNYAKSQPDMAIMAVNSFVKDCEDPNPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAKLHDINAQMVEDQGFLDSLRDLIADSNPMVVANAVAALSEISESHPNSNLLDLNPQNINKLLTALNECTEWGQIFILDCLSNYNPKDDREAQSICERVTPRLSHANSAVVLSAVKVLMKFLELLPKDSDYYNMLLKKLAPPLVTLLSGEPEVQYVALRNINLIVQKRPEILKQEIKVFFVKYNDPIYVKLEKLDIMIRLASQANIAQVLAELKEYATEVDVDFVRKAVRAIGRCAIKVEQSAERCVSTLLDLIQTKVNYVVQEAIVVIRDIFRKYPNKYESIIATLCENLDSLDEPDARAAMIWIVGEYAERIDNADELLESFLEGFHDESTQVQLTLLTAIVKLFLKKPSETQELVQQVLSLATQDSDNPDLRDRGYIYWRLLSTDPVTAKEVVLSEKPLISEETDLIEPTLLDELICHIGSLASVYHKPPNAFVPQVIPSQGDLLGDLLNLD 635
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       523       533       543       553       563       573       618       628       
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            582|                 
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             618                 


Chain M from PDB  Type:PROTEIN  Length:396
                                                                                                                                                                                                                                                                                                                                                                                                                                            
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...eeeee.....eeeeee.....hhhhhhhhhhhh..........eeee..eeeeeeee..eeeeeee....hhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhee..ee...hhhhhh........................eeeeeeeeeeeeee.....eeeeeeeeeeeeeee.....eeeeee...........eeee...eee...eee....eeeeeeeeee.......eeeeeeeeee...eeeeeeeeee......eeeeeeeeee....eeeeeeee...eeeee....eeeeeeeeee...eeeeeeeeee.............eeeeeee........eeeeeee......hhhhheeeeeeeeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4uqi M   1 MIGGLFIYNHKGEVLISRVYRDDIGRNAVDAFRVNVIHARQQVRSPVTNIARTSFFHVKRSNIWLAAVTKQNVNAAMVFEFLYKMCDVMAAYFGKISEENIKNNFVLIYELLDEILDFGYPQNSETGALKTFITQQGIKSQIGWRREGIKYRRNELFLDVLESVNLLMSPQGQVLSAHVSGRVVMKSYLSGMPECKFGMNDKIVISIAIDDCTFHQCVRLSRSISFIPPDGEFELMRYRTTKDIILPFRVIPLVREVGRTKLEVKVVIKSNFKPSLLAQKIEVRIPTPLNTSGVQVICMKGKAKYKASENAIVWKIKRMAGMKESQISAEIELLPTNDKKKWARPPISMNFEVPFAPSGLKVRYLKVFEPKLNYSDHDVIKWVRYIGRSGIYETRC 435
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140||     167       177       187       197       207       217    || 244       254||     269       279       289       299       309       319       329       339       349       359       369       379       389       399       409       419       429      
                                                                                                                                                                      141|                                                            222|            255|                                                                                                                                                                              
                                                                                                                                                                       159                                                             240             261                                                                                                                                                                              


Chain S from PDB  Type:PROTEIN  Length:142
                                                                                                                                                                              
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeee....eeeeee....hhhhhhhhhhhhhhhhhh.......eeee..eeeeeeee..eeeeeee....hhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhee..ee...hhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4uqi S   1 MIRFILIQNRAGKTRLAKWYMQFDDDEKQKLIEEVHAVVTVRDAKHTNFVEFRNFKIIYRRYAGLYFCICVDVNDNNLAYLEAIHNFVEVLNEYFHNVCELDLVFNFYKVYTVVDEMFLAGEIRETSQTKVLKQLLMLQSLE 142
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4UQI)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4UQI)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4UQI)

(-) Gene Ontology  (49, 85)

Asymmetric/Biological Unit(hide GO term definitions)

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  4uqi
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  AP2A2_RAT | P18484
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  AP2B1_HUMAN | P63010
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  AP2M1_RAT | P84092
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  AP2S1_MOUSE | P62743
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        AP2A2_RAT | P18484: 2vgl 2xa7 4nee
        AP2B1_HUMAN | P63010: 1e42 2g30 2iv8 2iv9 2jkr 2jkt 2vgl 2xa7 5m5r
        AP2M1_RAT | P84092: 1bw8 1bxx 1h6e 1hes 1i31 2bp5 2jkr 2jkt 2pr9 2vgl 2xa7 3h85 3ml6 5c7z 5fpi
        AP2S1_MOUSE | P62743: 2jkr 2jkt 2vgl 2xa7

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 4UQI)